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Currently, the ProbABEL output only lists the chi^2 value (calculated via the likelihood ratio test) in the last column of the output. We are planning to add p-value support to the output as well, and work is on the way, but since I don't have direct funding for ProbABEL development anymore, this is low on my priority list, so I can't promise a delivery date. Of course, if you have some funds and/or would like to help out with finishing the p-value work, feel free to contact me so we can discuss the various options.

In the mean time, I think the easiest way is to calculate the p-values yourself based on the chi^2 column (e.g. in R).